Aaron Wright

Undiagnosed Diseases Network Metabolomics Core

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

A state of the art metabolomics core will be a vital part of the Undiagnosed Diseases Network (UDN). However, in order for the UDN to realize it’s the full potential it is essential that the…

ABPP of Opioid and Sedative Receptors to Improve Medical Countermeasure Development

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

This EMSL Resource Owner proposal seeks to utilize Orbitrap MS capabilities for advancing our understanding of opioid and sedative exposures, which could lead to developing safe and efficacious…

Combining Proteomic Technologies to Create a Platform for Spatiotemporal Enzyme Activity Profiling

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Susan Wiedner

There is a need to investigate the functional activity of enzymes on the subcellular level to increase the understanding of a multitude of biological processes and protein interactions. The…

Metabolic Flux Coupling in Microbial Consortia: Demystifying Metabolic Exchanges across Species

Lead Institution

University of Tromso - The Arctic University of Norway

Principal Investigator

Hans Bernstein

Project type

Large-Scale EMSL Research

We propose to employ EMSL's state-of-the-art metabolomics capabilities to gain a predictive understanding of how compartmentalized metabolic reactions are coordinated across carbon and energy…

Plastic Degrading Microbial Communities from Insect Larvae Guts

Lead Institution

University of Delaware

Principal Investigator

Mark Blenner

Project type

FICUS Research

Insect microbial consortia are attractive platforms for plastics deconstruction and conversion as they degrade plastics more rapidly than microbial isolates and do not require pretreatment. While…

Genome-Enabled Studies of Photosynthetic Microorganisms for Bioenergy Applications - Chemical Protein Profiling

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

As part of PNNL's Scientific Focus Area "Genome-Enabled Studies of Photosynthetic Microorganisms for Bioenergy Applications" this project is applying and developing click-chemistry…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lipid Activity Probes for the Chemical Proteomic Characterization of Protein Targets

Lead Institution

University of Tennessee

Principal Investigator

Michael Best

Project type

Large-Scale EMSL Research

Lipids including diacyglycerol, phosphatidic acid and the phosphatidylinositol polyphosphates regulate numerous critical biological processes, many of which are aberrant in disease or involved in the…

Discovery and Qualification of TB Surrogate Markers of Treatment

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

The research goal is to develop a blood-based, quantitative, biomarker assay panel using a proven, high sensitivity, multiplexed electrochemiluminescence platform that can in combination with…

Activity-Based Protein Profiling of Enzyme Ontogeny: Metabolism in Sensitive Life Stages

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Corley

Metabolism is a key step in the activation of many procarcinogens, including the polyaromatic hydrocarbon (PAH) dibenzo[def,p]chrysene (DBC). DBC is a highly potent carcinogenic PAH, capable of…

Unraveling New Pathways for Carbon Capture to Enhance Lipid-Biomass Feedstocks

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

James Evans

Organisms have evolved a number of spatially localized processes to efficiently break down, absorb, and use necessary metabolites. Although progress has been made in identifying the genes that are…

Discovery and Qualification of TB Surrogate Markers of Treatment

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

The research goal is to develop a blood-based, quantitative, biomarker assay panel using a proven, high sensitivity, multiplexed electrochemiluminescence platform that can in combination with…

FSFA: MOSAIC—Metabolic and Spatial Interactions in Communities

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Errol Robinson

This EMSL user proposal is to support the MOSAIC DOE BER funded FSFA at PNNL. The primary activities involving EMSL are a set of BSSD demonstration tasks focusing on key science questions and related…

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

FSFA: MOSAIC -- Metabolic and Spatial Interactions in Communities FY18 proposal

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Errol Robinson

This EMSL user proposal is to support the MOSAIC DOE BER funded FSFA at PNNL. The primary activities involving EMSL are a set of BSSD demonstration tasks focusing on key science questions and related…

Collaborative Research Projects Supported by the NCRR P41 Resource Center

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

David Camp

Project type

Large-Scale EMSL Research

The Proteomics Resource Center for Integrative Biology at PNNL was established in 2003 and builds on the unique instrumentation and the infrastructure provided by PNNLs EMSL facility. The mission of…

Identification and Quantification of Active Bacterial Monooxygenases in Environmental Samples Using Activity-Based Protein Profiling (ABPP)

Lead Institution

North Carolina State University

Principal Investigator

Michael Hyman

Project type

Large-Scale EMSL Research

Bacterial monooxygenases are enzymes the initiate the aerobic biodegradation of a wide variety of environmentally important chemicals. These include key intermediates in the biogeochemical cycles of…

Rapid quantification of fecal microbiome-associated enzyme functional activities for microtiter plate-based probe assays

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

Characterizing the role of gut microbiota in human drug metabolism will be an important step towards tailored/personalized therapy that would be more efficient, cost-effective, and with lower adverse…

Preliminary Proteomics of Microbial-Host Systems

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

In this collaborative study we will analyze and characterize microbial-host interactions using proteomics. The serum of healthy and anthrax-infected macaques will be analyzed to assess qualitatively…

Systems Biology Through an Integrated Multimodal Imaging and Analysis Framework

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

James Evans

Organisms have evolved a number of spatially localized processes to efficiently break down, absorb, and use necessary metabolites. Although progress has been made in identifying the genes that are…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

High-Throughput Proteomics: Applications and Development (PNNL Scope #40601 and #43488)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Gordon Anderson

This project involves the application and development of high-throughput proteomics and quantitative measurement capabilities within biological systems. More so, application measurements will be…

A Molecular Atlas of the Developing Lung

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Richard Corley

The United States is one of the top nations for prematurely born infants and has a correspondingly high dayone infant mortality rate. Expanding our understanding of alveologenesis is a critical step…

Multiplexed Probing for Functional Capacity Measurements in Complex and Limited-Size Samples

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

The TIP LDRD program at PNNL has supported the development, application and patenting of novel strategies to functionalize activity-based chemical probes to glass surfaces for making measurements of…

Signal transduction pathways regulating genetic exchange

Lead Institution

Memorial University of Newfoundland

Principal Investigator

Andrew Lang

Project type

Large-Scale EMSL Research

The alphaproteobacterium R. capsulatus is a model organism for studying photosynthesis, nitrogen fixation, and hydrogen production. R. capsulatus also produces a virus-like particle called the &quot…

Systems Biology Through an Integrated Multimodal Imaging and Analysis Framework

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

James Evans

Organisms have evolved a number of spatially localized processes to efficiently break down, absorb, and use necessary metabolites. Although progress has been made in identifying the genes that are…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

Regulatory dynamics of microbial communities

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

H Wiley

Project type

Large-Scale EMSL Research

This is a proposal to conduct work in EMSL in support of the Foundational Scientific Focus Area (FSFA) research program at Pacific Northwest National Laboratory. This large-scale research program…

Pan-Omics Technology Development, Implementation, and Application to GSP Systems Biology Research

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Joshua Adkins

The BER Genome Science Program aims to understand complex biological and environmental systems across spatial and temporal scales to develop predictive knowledge relevant to DOE mission challenges…

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

Jon Jacobs

Collaborative research projects in the PNNL NIH P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

David Camp

Collaborative research projects in the PNNL NIH NCRR P41 Biomedical Technology Research Center 'Proteomics research resource for integrative biology'

Dissection and Deciphering of the Soil Microbiome

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Janet Jansson

This proposal aims to address key gaps in our knowledge about the composition and functional roles of the tens of thousands of microbial species in soil. Although these microorganisms carry out…

Prediction of soil microbiome phenotypic responses to changing moisture conditions

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Jason McDermott

The goal of this project is to attain a systems level understanding of the soil microbiome and its phenotypic response to changing moisture through a tractable, spatially explicit examination of the…

Reconstructing the Mycobacterium Tuberculosis Metabolic Model

Lead Institution

National Institute of Allergy and Infectious Diseases

Principal Investigator

Clifton Barry

Project type

Large-Scale EMSL Research

Tuberculosis (TB) kills 3 million people every year, and the rising tide of drug-resistant TB threatens to overwhelm global health programs. New and improved drugs are urgently needed to shorten the…

Biosystems Analysis for Determining the Impact of Nutrient Uptake on Autotroph-Heterotroph Interactions within Cyanobacterial Consortia

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Stephen Callister

Project type

Large-Scale EMSL Research

The exchange of carbon and other nutrients between microorganisms is a key factor in the establishment of microbial interactions and trophic levels. Depending upon the nutrient, the establishment of…

Discovery and Biological Signatures of Microbiome-Derived Xanthohumol (XN) Metabolites and their Role in Ameliorating Inflammatory Bowel Disease (IBD)

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

The limitations of current therapies for treatment of inflammatory bowel disease (IBD) underscore the need for new therapeutic modalities that both target the inflamed gut and the microbial dysbiosis…

Proteomics Measurements of Functional Redundancy and Stability Testing of Cellulose Degrading Anaerobic Microbial Communities within Engineered Bioreactors

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Stephen Callister

An understanding of the role of functional redundancy within a microbial community is fundamental to predicting the stability associated with key services provided by that community. One provided…

Systems Biology Through an Integrated Multimodal Imaging and Analysis Framework

Lead Institution

Environmental Molecular Sciences Laboratory

Principal Investigator

James Evans

Organisms have evolved a number of spatially localized processes to efficiently break down, absorb, and use necessary metabolites. Although progress has been made in identifying the genes that are…

Identifying & Translating OP Receptors in Animal Models and Humans using ABPP

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

This EMSL Resource Owner proposal requests use of EMSL resources, owned or co-owned, in order to successfully accomplish the use of activity based protein profiling (ABPP) capabilities to identify…

Identification of Functional Proteins Relevant to Bioenergy and Disease Pathology by Multiplexed Activity-Based Protein Profiling

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Aaron Wright

Develop multiplexed activity-based protein profiling and apply to identification of P450s in Mycobacterium tuberculosis and biomarkers in Aspergillus fumigatus. Additionally the technology will be…

Deciphering Microbial Communication Through Metabolites

Lead Institution

Pacific Northwest National Laboratory

Principal Investigator

Thomas Metz

This project will establish a Metabolomics Center at PNNL that will develop the advanced measurement capabilities necessary to define the metabolic processes of microbiomes and determine how these…